Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

213

Sequences:

1145

Seq/Len:

5.38

HH_delta:

0.949 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

175_F

193_G

0.3846

3.308

72_W

76_N

0.33532

2.884

67_R

117_M

0.31902

2.744

100_E

104_E

0.26692

2.296

90_R

96_E

0.24872

2.139

82_K

104_E

0.23845

2.051

77_N

80_E

0.23025

1.981

98_D

101_E

0.21054

1.811

102_I

106_L

0.20945

1.802

49_A

135_A

0.20702

1.781

19_L

40_G

0.20692

1.780

205_A

209_L

0.20211

1.739

52_E

138_T

0.20083

1.728

179_Y

189_W

0.2007

1.726

95_S

105_E

0.19747

1.699

73_E

121_L

0.1942

1.670

164_I

168_A

0.19079

1.641

136_L

140_L

0.18809

1.618

84_E

120_E

0.18562

1.597

41_L

146_G

0.18558

1.596

15_T

40_G

0.18557

1.596

50_V

199_I

0.18442

1.586

111_D

114_D

0.1843

1.585

116_M

120_E

0.18158

1.562

175_F

197_L

0.17894

1.539

7_F

138_T

0.17836

1.534

73_E

120_E

0.17702

1.523

13_L

173_A

0.17694

1.522

171_I

197_L

0.17613

1.515

82_K

107_S

0.17587

1.513

98_D

105_E

0.17397

1.496

168_A

172_L

0.17316

1.490

4_D

52_E

0.16983

1.461

81_E

120_E

0.16723

1.438

44_G

142_F

0.16536

1.422

13_L

152_P

0.16452

1.415

70_E

73_E

0.16443

1.414

89_Y

102_I

0.16431

1.413

87_E

90_R

0.16348

1.406

83_E

87_E

0.16159

1.390

98_D

102_I

0.16062

1.382

101_E

104_E

0.15973

1.374

89_Y

119_E

0.15231

1.310

17_F

204_A

0.14391

1.238

86_V

96_E

0.14338

1.233

165_A

168_A

0.14267

1.227

181_K

192_S

0.1425

1.226

79_E

97_E

0.14224

1.224

118_R

122_G

0.14194

1.221

81_E

116_M

0.14175

1.219

82_K

86_V

0.14136

1.216

174_L

200_G

0.14132

1.216

83_E

100_E

0.14099

1.213

56_V

59_E

0.14093

1.212

73_E

81_E

0.14054

1.209

70_E

81_E

0.13986

1.203

183_R

189_W

0.13949

1.200

171_I

201_L

0.13944

1.199

28_V

36_A

0.13829

1.190

52_E

55_S

0.13813

1.188

68_E

71_E

0.13791

1.186

74_L

113_L

0.13744

1.182

161_E

164_I

0.13735

1.181

50_V

203_A

0.13623

1.172

44_G

138_T

0.13605

1.170

52_E

134_A

0.13557

1.166

201_L

205_A

0.13386

1.151

15_T

44_G

0.1337

1.150

86_V

100_E

0.13315

1.145

181_K

193_G

0.13307

1.145

66_E

69_R

0.13267

1.141

79_E

83_E

0.13199

1.135

56_V

195_E

0.13167

1.133

15_T

142_F

0.13163

1.132

46_I

50_V

0.13117

1.128

32_V

36_A

0.13025

1.120

88_I

119_E

0.1297

1.116

70_E

84_E

0.1289

1.109

67_R

71_E

0.12864

1.107

37_G

150_L

0.12731

1.095

82_K

100_E

0.12688

1.091

14_V

203_A

0.12392

1.066

86_V

90_R

0.12365

1.064

89_Y

92_K

0.12328

1.060

8_G

48_M

0.12267

1.055

138_T

195_E

0.12254

1.054

69_R

73_E

0.12107

1.041

73_E

84_E

0.12092

1.040

67_R

113_L

0.11978

1.030

140_L

201_L

0.11972

1.030

152_P

169_V

0.11949

1.028

156_L

165_A

0.11918

1.025

115_F

119_E

0.11893

1.023

49_A

134_A

0.11835

1.018

69_R

121_L

0.11755

1.011

4_D

10_N

0.1166

1.003

76_N

83_E

0.1161

0.999

44_G

145_G

0.11593

0.997

3_R

10_N

0.1159

0.997

41_L

143_I

0.11572

0.995

52_E

142_F

0.11557

0.994

15_T

138_T

0.11545

0.993

48_M

51_G

0.11508

0.990

15_T

174_L

0.11453

0.985

31_S

209_L

0.11441

0.984

83_E

96_E

0.11426

0.983

97_E

104_E

0.11389

0.980

164_I

173_A

0.11366

0.978

40_G

142_F

0.11363

0.977

81_E

84_E

0.1136

0.977

134_A

138_T

0.11358

0.977

4_D

138_T

0.11351

0.976

16_T

146_G

0.11311

0.973

85_L

116_M

0.1131

0.973

71_E

75_E

0.11291

0.971

4_D

7_F

0.1129

0.971

38_L

150_L

0.11287

0.971

187_Q

191_R

0.11277

0.970

54_L

59_E

0.11274

0.970

45_A

52_E

0.11154

0.959

70_E

116_M

0.1106

0.951

7_F

45_A

0.11055

0.951

25_G

43_A

0.11049

0.950

48_M

55_S

0.11037

0.949

17_F

170_T

0.11032

0.949

29_S

32_V

0.11005

0.947

57_K

60_R

0.1096

0.943

160_S

168_A

0.10935

0.941

94_L

106_L

0.10883

0.936

172_L

176_I

0.10868

0.935

5_A

141_S

0.10847

0.933

3_R

145_G

0.10822

0.931

155_F

212_Y

0.1069

0.920

9_A

142_F

0.10633

0.915

44_G

174_L

0.10605

0.912

140_L

144_L

0.10602

0.912

72_W

75_E

0.10584

0.910

96_E

100_E

0.10583

0.910

66_E

121_L

0.10566

0.909

101_E

205_A

0.10547

0.907

181_K

196_M

0.10538

0.906

37_G

149_P

0.105

0.903

11_D

48_M

0.10487

0.902

70_E

121_L

0.10481

0.902

4_D

134_A

0.10421

0.896

25_G

208_Y

0.10418

0.896

189_W

193_G

0.10393

0.894

87_E

91_A

0.1031

0.887

137_A

141_S

0.10308

0.887

92_K

103_A

0.10277

0.884

60_R

128_E

0.10248

0.882

92_K

119_E

0.10212

0.878

17_F

153_Y

0.1021

0.878

104_E

168_A

0.10164

0.874

38_L

143_I

0.10152

0.873

153_Y

162_A

0.10109

0.870

148_I

169_V

0.10077

0.867

57_K

181_K

0.10072

0.866

51_G

55_S

0.10068

0.866

75_E

110_K

0.1006

0.865

41_L

203_A

0.10048

0.864

148_I

164_I

0.10037

0.863

106_L

112_A

0.10024

0.862

13_L

177_L

0.10004

0.861

70_E

120_E

0.09995

0.860

4_D

195_E

0.09993

0.860

21_A

150_L

0.09981

0.859

21_A

173_A

0.09959

0.857

40_G

44_G

0.09958

0.857

75_E

83_E

0.09918

0.853

132_W

136_L

0.09902

0.852

85_L

115_F

0.099

0.852

33_V

37_G

0.09894

0.851

178_G

193_G

0.09884

0.850

116_M

121_L

0.09853

0.848

206_V

209_L

0.09819

0.845

9_A

145_G

0.098

0.843

52_E

56_V

0.09794

0.842

188_S

191_R

0.09782

0.841

42_I

139_F

0.09767

0.840

17_F

202_I

0.09766

0.840

166_S

173_A

0.09756

0.839

30_S

33_V

0.09746

0.838

47_S

51_G

0.09741

0.838

18_G

203_A

0.09736

0.837

152_P

162_A

0.09725

0.837

107_S

110_K

0.09707

0.835

199_I

203_A

0.097

0.834

20_V

166_S

0.09693

0.834

44_G

207_T

0.09646

0.830

114_D

127_E

0.09645

0.830

114_D

126_E

0.0963

0.828

168_A

190_W

0.09621

0.828

83_E

123_L

0.09617

0.827

162_A

166_S

0.09556

0.822

7_F

52_E

0.09554

0.822

138_T

142_F

0.09549

0.821

124_S

127_E

0.09548

0.821

7_F

10_N

0.09545

0.821

136_L

172_L

0.09509

0.818

18_G

177_L

0.09504

0.818

139_F

196_M

0.0949

0.816

42_I

50_V

0.09435

0.812

104_E

108_K

0.09421

0.810

49_A

56_V

0.09417

0.810

18_G

207_T

0.09402

0.809

165_A

210_I

0.09395

0.808

176_I

191_R

0.09386

0.807

78_P

82_K

0.09355

0.805

84_E

121_L

0.09347

0.804

21_A

163_F

0.09333

0.803

181_K

204_A

0.09325

0.802

108_K

112_A

0.09316

0.801

25_G

153_Y

0.09306

0.800

161_E

176_I

0.093

0.800

15_T

24_A

0.09288

0.799

4_D

142_F

0.09286

0.799

23_V

142_F

0.09284

0.799

114_D

118_R

0.09259

0.796

70_E

113_L

0.09253

0.796

152_P

166_S

0.09239

0.795

10_N

15_T

0.09238

0.795

56_V

138_T

0.09208

0.792

76_N

80_E

0.09201

0.791

8_G

12_G

0.09198

0.791

4_D

181_K

0.09181

0.790

188_S

206_V

0.09178

0.789

15_T

146_G

0.09175

0.789

15_T

150_L

0.09155

0.788

18_G

204_A

0.09152

0.787

59_E

134_A

0.0915

0.787

93_G

102_I

0.09148

0.787

36_A

40_G

0.09146

0.787

147_L

151_L

0.09137

0.786

97_E

101_E

0.09131

0.785

75_E

127_E

0.09124

0.785

82_K

90_R

0.09123

0.785

170_T

177_L

0.09096

0.782

79_E

194_L

0.09094

0.782

171_I

202_I

0.09079

0.781

57_K

61_D

0.09078

0.781

142_F

174_L

0.09064

0.780

61_D

64_E

0.09064

0.780

105_E

117_M

0.09058

0.779

152_P

193_G

0.09045

0.778

10_N

13_L

0.08984

0.773

182_A

189_W

0.08984

0.773

95_S

102_I

0.08982

0.773

188_S

192_S

0.08963

0.771

56_V

134_A

0.08953

0.770

171_I

198_L

0.0894

0.769

86_V

117_M

0.08939

0.769

107_S

111_D

0.08934

0.768

16_T

152_P

0.08922

0.767

55_S

99_A

0.08912

0.767

19_L

45_A

0.08897

0.765

173_A

208_Y

0.08896

0.765

17_F

181_K

0.08885

0.764

114_D

167_I

0.08879

0.764

14_V

40_G

0.08873

0.763

75_E

82_K

0.08864

0.762

40_G

138_T

0.08857

0.762

84_E

88_I

0.08836

0.760

148_I

173_A

0.08815

0.758

58_S

129_E

0.08815

0.758

99_A

103_A

0.0881

0.758

69_R

168_A

0.08801

0.757

176_I

180_F

0.08795

0.757

86_V

104_E

0.08781

0.755

13_L

166_S

0.08769

0.754

190_W

193_G

0.08756

0.753

9_A

15_T

0.08732

0.751

24_A

106_L

0.08729

0.751

44_G

48_M

0.08724

0.750

15_T

52_E

0.08715

0.750

31_S

35_L

0.08679

0.747

25_G

45_A

0.08613

0.741

40_G

43_A

0.08608

0.740

134_A

145_G

0.08602

0.740

61_D

143_I

0.086

0.740

23_V

26_A

0.08593

0.739

10_N

18_G

0.08592

0.739

65_A

70_E

0.08565

0.737

138_T

207_T

0.08554

0.736

64_E

151_L

0.08553

0.736

69_R

72_W

0.08536

0.734

201_L

209_L

0.08536

0.734

182_A

185_S

0.08533

0.734

137_A

181_K

0.08515

0.732

88_I

92_K

0.0851

0.732

151_L

161_E

0.08486

0.730

13_L

44_G

0.08479

0.729

20_V

170_T

0.08463

0.728

93_G

103_A

0.08449

0.727

193_G

196_M

0.08447

0.727

14_V

166_S

0.0843

0.725

140_L

205_A

0.08394

0.722

13_L

203_A

0.08374

0.720

79_E

176_I

0.08355

0.719

101_E

117_M

0.08354

0.719

22_G

47_S

0.08342

0.718

94_L

102_I

0.08318

0.716

43_A

129_E

0.08315

0.715

195_E

207_T

0.08312

0.715

4_D

55_S

0.08307

0.715

48_M

149_P

0.08304

0.714

66_E

70_E

0.08291

0.713

20_V

206_V

0.08276

0.712

104_E

194_L

0.08268

0.711

208_Y

212_Y

0.08265

0.711

108_K

113_L

0.0826

0.711

43_A

204_A

0.08259

0.710

4_D

56_V

0.08257

0.710

94_L

105_E

0.08231

0.708

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)